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Promoter regions of 27% of genes up-regulated present at least one significant occurrence of an ABA-responsive CRE.

Of these, approximately 53% were down-regulated, presenting 1649 unique possible targets for miRNA-mediated repression.

On the other hand, a total of 3315 DEGs (1585 up- and 1730 down- regulated), were present in the W + F vs W comparison (Fig. 3b); while 2385 DEGs (992 up- and 1393 down-regulated) were obtained from the C + F vs C comparison (Fig. 3b).

LASE-a, which was shown to be brain specific and developmentally regulated, was present in cell bodies of cultured granule cells, but was absent in neurites.

A total of 499 targets (295 up-regulated and 204 down-regulated) are present in the group of 886 DEGs found in 2-month old Mir122a -/- mice livers [ 32].

Although a more detailed investigation is warranted, the involvement of extracellular signal-regulated kinase1/2 is less likely as P31res1.2 cells have about half the amount of phosphorylated extracellular signal-regulated kinase1 and extracellular signal-regulated kinase2 present in P31 cells.

Next, we analyzed the 20 most strongly expressed genes between the two treatments (CK vs. JA and CK vs. MeJA) and identified nine up-regulated genes and four down-regulated genes present in both treatments (Additional file 15).

Genes encoding for terpene synthase, anthranilate N-benzoyltransferase, chalcone synthase, flavonol synthase and isoflavone reductase were among down-regulated genes present in Kavya (Figure 3).

As a prerequisite, RGs used not co-regulated or present on the same pathway and would therefore have stable expression in the experiment under consideration (Bower and Johnston 2009).

The up-regulated genes present putative cis-regulatory elements in their promoter region indicating that many transcription factors may modulate the expression of these genes, and that these genes are probably multi-stress responsive.

On the other hand, our analysis revealed that 16 ET-related DEGs (5 up- and 11 down-regulated) were present in the C + F vs C comparison, and 15 ET-related DEGs (10 up- and 5 down-regulated) were found in the W + F vs W comparison (Fig. 6b).